NCBI "NCBI Entrez Direct User's Manual"
NAME¶
efilter - filter and/or sort NCBI Entrez search results
SYNOPSIS¶
efilter (efetch -filter) [-help] [-q[uery]
str] [-sort field] [-days N]
[-datetype field] [-mindate date]
[-maxdate date]
[-field field]
[-pairs field]
[-spell]
[-pub type]
[-journal name]
[-released when]
[-country name]
[-feature type]
[-location type]
[-molecule type]
[-organism type]
[-source type]
[-status alive]
[-type type]
[-class class]
[-label name]
DESCRIPTION¶
efilter filters and/or sorts results from a previous edirect(1)
search.
OPTIONS¶
Query Specification¶
- -q[uery] str
- Limit results to those matching the given query string.
Document Order¶
- -sort field
- Sort results by the given field.
Date Constraint¶
- -days N
- Keep only results from the past N days.
- -datetype field
- Which date field (in abbreviated form) to consider.
- -mindate date
- Start of date range.
- -maxdate date
- End of date range.
Limit by Field¶
- -field field
- Query words individually in field.
- -pairs field
- Query overlapping word pairs.
Spell Check¶
- -spell
- Correct misspellings in query.
Publication Filters¶
- -pub type
- abstract, clinical, english, free,
historical, journal, preprint, review,
structured.
- -journal name
- pnas, "j bacteriol", ...
- -released when
- last_week, last_month, last_year,
prev_years.
Sequence Filters¶
- -country name
- usa:minnesota, united_kingdom,
"pacific ocean", ...
- -feature type
- gene, mrna, cds, mat_peptide, ...
- -location type
- mitochondrion, chloroplast, plasmid,
plastid.
- -molecule type
- genomic, mrna, trna, rrna, ncrna.
- -organism type
- animals, archaea, bacteria, eukaryotes,
fungi, human, insects, mammals, plants,
prokaryotes, protists, rodents, viruses,
...
- -source type
- genbank, insd, pdb, pir, refseq,
swissprot, tpa
Gene Filters¶
- -status alive
- -type type
- coding, pseudo.
SNP Filters¶
- -class class
- acceptor, donor, frameshift, indel,
intron, missense, nonsense, synonymous.
Miscellaneous Arguments¶
- -help
- Print usage information.
- -label name
- Alias for query step.
